How to plot length distribution of contigs in the assembly?

Dear all,

Could anybody please let me know if there is a convenient way to plot distribution of contigs numbers vs. contig length?

Thanks

plotting assembly length-distribution

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updated 3.9 years ago by Ram

• written 10.9 years ago by seta

3 answers

Quast produces such plots and other useful assembly statistics as well. See also Quast Is A Convenient Tool For Assembly Evaluation.

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written 10.9 years ago by thackl

use this Python script. Easy to use: python contigPlot.py fastaDir.

Where fastaDir is directory name containing genome files (extension .fasta)

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written 7.8 years ago by Dattatray Mongad

Check out a shell wrapper in the link below which is based on seqkit that I wrote couple of weeks ago

C: SeqKit: a cross-platform and ultrafast toolkit for FASTA/Q file manipulation in

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written 7.8 years ago by lakhujanivijay

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